LAMMPS (27 Nov 2018)
  using 1 OpenMP thread(s) per MPI task
# Simple rigid body system

units		lj
atom_style	atomic

pair_style	lj/cut 2.5

read_data	data.rigid
  orthogonal box = (-12 -12 -12) to (12 12 12)
  1 by 2 by 2 MPI processor grid
  reading atoms ...
  81 atoms

velocity 	all create 100.0 4928459

# unconnected bodies

#group		clump1 id <> 1 9
#group		clump2 id <> 10 18
#group		clump3 id <> 19 27
#group		clump4 id <> 28 36
#group		clump5 id <> 37 45
#group		clump6 id <> 46 54
#group		clump7 id <> 55 63
#group		clump8 id <> 64 72
#group		clump9 id <> 73 81

#fix 1 all rigid group 9 clump1 clump2 clump3 clump4 clump5 #	  	      clump6 clump7 clump8 clump9

# 1 chain of connected bodies

#group		clump1 id <> 1 9
#group		clump2 id <> 9 18
#group		clump3 id <> 18 27
#group		clump4 id <> 27 36
#group		clump5 id <> 36 45
#group		clump6 id <> 45 54
#group		clump7 id <> 54 63
#group		clump8 id <> 63 72
#group		clump9 id <> 72 81

#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 #	  	      clump6 clump7 clump8 clump9

# 2 chains of connected bodies

group		clump1 id <> 1 9
9 atoms in group clump1
group		clump2 id <> 9 18
10 atoms in group clump2
group		clump3 id <> 18 27
10 atoms in group clump3
group		clump4 id <> 27 36
10 atoms in group clump4
group		clump5 id <> 37 45
9 atoms in group clump5
group		clump6 id <> 45 54
10 atoms in group clump6
group		clump7 id <> 54 63
10 atoms in group clump7
group		clump8 id <> 63 72
10 atoms in group clump8
group		clump9 id <> 72 81
10 atoms in group clump9

fix 1 all poems group clump1 clump2 clump3 clump4
1 clusters, 4 bodies, 3 joints, 36 atoms
fix 2 all poems group clump5 clump6 clump7 clump8 clump9
1 clusters, 5 bodies, 4 joints, 45 atoms

neigh_modify	exclude group clump1 clump1
neigh_modify	exclude group clump2 clump2
neigh_modify	exclude group clump3 clump3
neigh_modify	exclude group clump4 clump4
neigh_modify	exclude group clump5 clump5
neigh_modify	exclude group clump6 clump6
neigh_modify	exclude group clump7 clump7
neigh_modify	exclude group clump8 clump8
neigh_modify	exclude group clump9 clump9

thermo		100

#dump		1 all atom 50 dump.rigid.poems2

#dump		2 all image 100 image.*.jpg type type #		axes yes 0.8 0.02 view 60 -30
#dump_modify	2 pad 5

#dump		3 all movie 100 movie.mpg type type #		axes yes 0.8 0.02 view 60 -30
#dump_modify	3 pad 5

timestep 	0.0001
thermo		50
run		10000
WARNING: More than one fix poems (src/POEMS/fix_poems.cpp:363)
WARNING: More than one fix poems (src/POEMS/fix_poems.cpp:363)
WARNING: One or more atoms are time integrated more than once (src/modify.cpp:283)
Neighbor list info ...
  update every 1 steps, delay 10 steps, check yes
  max neighbors/atom: 2000, page size: 100000
  master list distance cutoff = 2.8
  ghost atom cutoff = 2.8
  binsize = 1.4, bins = 18 18 18
  1 neighbor lists, perpetual/occasional/extra = 1 0 0
  (1) pair lj/cut, perpetual
      attributes: half, newton on
      pair build: half/bin/atomonly/newton
      stencil: half/bin/3d/newton
      bin: standard
Per MPI rank memory allocation (min/avg/max) = 3.825 | 3.919 | 4.201 Mbytes
Step Temp E_pair E_mol TotEng Press 
       0    196.00047    3632.2347            0    3668.5311   -2.7403788 
      50    12167.633    1505.5478            0    3758.8133    35.125973 
     100    17556.978    512.66277            0    3763.9549    11.137534 
     150    19579.586    138.04942            0    3763.8987   -29.953971 
     200     19757.51    105.30542            0    3764.1036 -0.030645317 
     250    18218.374    390.10747            0    3763.8804    13.711001 
     300    19383.039    174.40688            0    3763.8586    5.7240693 
     350    20125.986    36.972611            0    3764.0071    1.9559205 
     400    18888.816    266.10975            0    3764.0386    9.6362168 
     450    19307.656     188.2511            0     3763.743    1.9326206 
     500    16331.197    738.56392            0    3762.8597    9.1715579 
     550    19318.722    186.16172            0    3763.7027    3.0115336 
     600    19455.268    161.20621            0    3764.0336   0.55208034 
     650    18487.011    340.03216            0    3763.5528   -8.0359122 
     700    17321.201    556.32471            0    3763.9545   -13.631751 
     750    18979.187    249.04389            0    3763.7082   -2.6072455 
     800    19342.456    181.85552            0    3763.7918    8.1918726 
     850    19070.641    232.19342            0    3763.7936    7.3148472 
     900    19478.873    156.65987            0    3763.8586    2.4284987 
     950    19912.415    76.437437            0    3763.9216   -1.4667227 
    1000    16003.749    802.39753            0    3766.0548    46.642188 
    1050    19859.583     86.64176            0    3764.3424   -2.1961943 
    1100    19229.575    203.61488            0    3764.6473   -10.632365 
    1150      18821.6    279.15861            0      3764.64  -0.89495035 
    1200    19392.695    173.59744            0    3764.8373    1.8508753 
    1250    16459.624    717.32104            0    3765.3995    33.478127 
    1300    19343.863    182.59043            0    3764.7874   0.75890736 
    1350    20019.643    57.503573            0    3764.8448   0.31444671 
    1400    18549.582    329.31436            0    3764.4221    10.738303 
    1450    15163.926    957.47585            0    3765.6103   -17.923459 
    1500    19223.688    204.15176            0    3764.0939   -1.6134529 
    1550    18147.996    404.12677            0    3764.8668    8.4194781 
    1600    18615.043    317.42468            0    3764.6548   -2.3288926 
    1650    20120.654    38.887908            0     3764.935   -8.7620288 
    1700    19450.907    162.98267            0    3765.0025    2.3254739 
    1750    19374.631     177.3797            0    3765.2744    8.9328773 
    1800    19424.404    167.93965            0    3765.0514  0.081228843 
    1850    17936.227    442.84645            0    3764.3699    6.6011251 
    1900    19982.595    64.406244            0    3764.8868    -2.952971 
    1950    16215.818    761.91942            0    3764.8486    13.994877 
    2000    18584.433    322.11846            0    3763.6801    7.1653695 
    2050    20107.965    41.025796            0     3764.723  -0.31089763 
    2100    20002.329    60.593879            0    3764.7288   -6.7919882 
    2150    16949.817    626.58598            0    3765.4409    3.5087505 
    2200    20010.954      58.8082            0    3764.5403   -10.862143 
    2250    18982.732    247.00854            0    3762.3293  -0.53812607 
    2300    18401.276    354.88369            0    3762.5274    1.0921058 
    2350    19390.535    172.93951            0    3763.7793   -3.3524354 
    2400    16080.475    786.44896            0    3764.3146   -16.201558 
    2450    18870.293    268.77171            0    3763.2704    11.199749 
    2500    19688.508    117.54164            0    3763.5617    4.3806994 
    2550    18870.328    268.87896            0    3763.3841   -5.6641099 
    2600    17020.211    611.54841            0    3763.4394    6.3081434 
    2650    18748.838    291.88478            0    3763.8917    2.4175163 
    2700    19743.991    106.92945            0     3763.224  -0.33916964 
    2750    19525.446    147.60906            0    3763.4324   -1.6251174 
    2800    18257.411    381.40184            0    3762.4038     23.39495 
    2850    18496.796    337.65425            0    3762.9868    4.3657735 
    2900    20163.418    29.253902            0    3763.2203    1.4431917 
    2950    16823.317    646.69817            0    3762.1273    4.9041552 
    3000    19223.007     203.2529            0     3763.069    4.0414458 
    3050     17391.02    542.93746            0    3763.4968    15.139863 
    3100      19205.6    206.57791            0    3763.1705    4.8519241 
    3150    19835.659    90.247763            0    3763.5179   -14.900053 
    3200    18962.776     251.5838            0    3763.2089   -13.706561 
    3250    19418.837    167.29058            0    3763.3716   -2.0866468 
    3300    18628.291    313.69067            0    3763.3742    5.9919715 
    3350    17465.974    529.14439            0    3763.5841    14.122593 
    3400    18488.661     339.6186            0    3763.4448    21.526798 
    3450    19163.152    214.26098            0    3762.9928    4.1888096 
    3500     18000.27    429.81789            0    3763.2011    5.4734485 
    3550    19582.423    136.71887            0    3763.0935   -2.5335675 
    3600    19634.325     127.2219            0     3763.208   -1.9728322 
    3650    19428.114    165.40707            0    3763.2059   -2.3318779 
    3700    19861.116    85.356944            0    3763.3414   -3.9097609 
    3750    19337.239    182.43992            0    3763.4102   -3.3559651 
    3800    19493.146    153.40349            0    3763.2453  -0.71089657 
    3850    18607.616    317.74889            0    3763.6037     3.475832 
    3900     19719.59     111.5553            0    3763.3313   0.58876668 
    3950    19756.661     104.5522            0    3763.1931    3.7526698 
    4000    17904.708     447.1673            0     3762.854    12.270654 
    4050    19588.087    135.80435            0    3763.2279   0.94578945 
    4100    19065.901    232.38235            0    3763.1048   -2.7495195 
    4150    18775.075     286.2257            0    3763.0915   -3.7039858 
    4200    18800.725    281.46601            0    3763.0817   0.15619543 
    4250    19732.687    108.90618            0    3763.1075    3.0865861 
    4300    18278.151    377.63653            0    3762.4794    1.5768601 
    4350    17915.757     445.4804            0    3763.2133   -3.7040484 
    4400    15987.794    802.41575            0    3763.1183    22.252078 
    4450     19302.37    188.69495            0    3763.2079   0.91081327 
    4500     20039.32    52.304099            0    3763.2893   -2.0828905 
    4550    19535.953     145.4374            0    3763.2064   -3.3804255 
    4600    19700.723    114.79823            0    3763.0803   -1.1761163 
    4650    17804.641    465.85788            0    3763.0136    7.5947192 
    4700    19913.881    75.240289            0     3762.996   -2.1100557 
    4750    19982.484    62.535995            0     3762.996   -4.5821237 
    4800     17400.76    540.21707            0      3762.58   -5.8418778 
    4850     19199.88    206.90989            0    3762.4433    3.4536341 
    4900     19173.92    212.11327            0    3762.8392    5.0387071 
    4950    19236.635    200.57537            0    3762.9152   -1.4932783 
    5000    19077.616    230.04967            0    3762.9415    4.3742655 
    5050    19893.763    78.909747            0      3762.94   -1.5796711 
    5100    18884.746    265.68301            0    3762.8583    2.2767949 
    5150    17417.096    537.54036            0    3762.9286   -2.8632555 
    5200    18247.844    383.60092            0    3762.8312    10.384179 
    5250    19494.107    152.60532            0    3762.6251   -4.7617287 
    5300    18739.781    292.46206            0    3762.7919    23.210048 
    5350    19310.938    186.62363            0    3762.7232    14.895327 
    5400     19540.39    144.14287            0    3762.7336     6.094624 
    5450    20074.459    45.247888            0    3762.7403   -2.0871835 
    5500    19986.377    61.668045            0     3762.849   -2.4551918 
    5550    19038.904    237.07578            0    3762.7987    5.4250813 
    5600    19439.124     163.1438            0    3762.9816    4.1291468 
    5650    19480.321    155.58325            0    3763.0501   -3.5308058 
    5700    19869.291    83.651379            0    3763.1497   -7.8661592 
    5750    19991.447    61.068554            0    3763.1884   -6.8473586 
    5800    19454.072    160.36805            0    3762.9739     1.527662 
    5850    17994.409    430.95597            0    3763.2539   -5.6078082 
    5900    19209.794    205.74997            0    3763.1193    8.4113055 
    5950    19046.427    236.06321            0    3763.1793    10.463356 
    6000    19409.899    168.95271            0    3763.3785     2.542067 
    6050    18068.174    417.35443            0    3763.3125    10.498199 
    6100    19549.253    143.21885            0    3763.4509    2.3075797 
    6150    18464.719     344.0303            0    3763.4228   0.46469762 
    6200    19811.205     94.62725            0    3763.3689    1.2382763 
    6250     18715.36    297.26445            0    3763.0718   -3.4541762 
    6300    17115.664    594.09913            0    3763.6666    4.2065564 
    6350    18155.927    400.71764            0    3762.9264    1.1521258 
    6400    19873.093    83.169067            0    3763.3716   0.16383592 
    6450     19991.88     61.13218            0    3763.3321   -1.3008128 
    6500    19434.416    164.40698            0    3763.3728   -13.593422 
    6550    19855.253    86.645329            0     3763.544  -0.85704037 
    6600    19251.141    198.41152            0    3763.4376    4.3027745 
    6650    19741.815    107.69047            0     3763.582     4.994835 
    6700    19633.466    127.69333            0    3763.5203    6.3677145 
    6750    16231.353    757.83705            0    3763.6431   -1.5978692 
    6800    18863.396     270.1114            0    3763.3329   -11.915909 
    6850    19644.779    125.29421            0    3763.2163    -1.151217 
    6900    18883.642    266.06889            0    3763.0397   -4.3950749 
    6950    19042.364    236.54144            0    3762.9052    5.5718878 
    7000    18351.868    364.38028            0    3762.8743    7.8958273 
    7050    19981.031    62.840667            0    3763.0316   -5.8572298 
    7100    19796.372    97.073665            0    3763.0685   -3.5178361 
    7150    19805.385    95.235221            0     3762.899   -2.5481726 
    7200    18722.055    295.86113            0    3762.9084    13.826356 
    7250    19537.304    144.54234            0    3762.5616    1.2288666 
    7300    18787.328    283.49504            0    3762.6299    9.0044469 
    7350    18886.005    265.52121            0    3762.9295    6.6791881 
    7400    19891.864    79.239278            0    3762.9178   -2.3882842 
    7450    18164.752    399.07065            0    3762.9137    3.9400481 
    7500    18702.612      299.582            0    3763.0286    4.7987316 
    7550    19884.986    80.231665            0    3762.6365  -0.75016515 
    7600    19549.059    142.16243            0    3762.3586   -2.1035756 
    7650    18223.668     387.9047            0     3762.658   -17.064339 
    7700      19428.4    164.79531            0    3762.6473   -2.8342541 
    7750    19239.584    199.93029            0    3762.8163    3.1746033 
    7800    19458.005    159.46176            0    3762.7961     1.714515 
    7850    18320.308    369.77051            0    3762.4202    2.1422976 
    7900    18817.415    278.04812            0    3762.7546   0.94492621 
    7950    19892.761    79.115928            0    3762.9606    1.4948501 
    8000    19592.344     134.7639            0    3762.9758   -1.8520224 
    8050    19316.109    185.70579            0    3762.7631   -4.8061205 
    8100    19867.017    83.850395            0    3762.9277    -3.496391 
    8150    19129.936    220.29802            0    3762.8789   -2.8357376 
    8200    18449.554    346.30415            0    3762.8883    1.4417837 
    8250    18405.197    354.49049            0    3762.8602    6.7020283 
    8300    18310.437    372.25376            0    3763.0755    3.9043508 
    8350    18842.702    273.55075            0      3762.94   -10.987272 
    8400    18574.308    323.33378            0    3763.0204    12.008785 
    8450    15368.628    918.21692            0    3764.2591     34.80292 
    8500    18432.887    349.54013            0    3763.0378 0.00064258465 
    8550     15777.73    841.79263            0    3763.5945    15.473699 
    8600    17205.381     576.4515            0    3762.6331    2.3985544 
    8650    19773.742    101.48276            0    3763.2869    2.3978892 
    8700    19059.824    232.99716            0    3762.5941    5.2611349 
    8750    19006.086    243.41125            0    3763.0568    4.7880403 
    8800    19492.691     153.0188            0    3762.7763    1.9118755 
    8850    19625.883    128.44474            0    3762.8675    3.4157389 
    8900     19916.97    74.635094            0    3762.9629   -10.157254 
    8950    16012.956    798.16801            0    3763.5302    16.904998 
    9000    19364.051    177.00354            0    3762.9389   -13.373346 
    9050    19133.929    219.61882            0    3762.9389   -7.3824392 
    9100    18657.168    307.85939            0    3762.8905    9.3071421 
    9150    17975.904    434.21548            0    3763.0867    6.9609506 
    9200    19075.282    230.41699            0    3762.8767    7.0961232 
    9250    20115.276    37.578674            0    3762.6298    1.8678552 
    9300    18195.486    393.20682            0    3762.7413    13.272552 
    9350    19617.155    129.85893            0    3762.6653   -2.0849447 
    9400    19276.325    193.03425            0     3762.724   -2.8963555 
    9450    18642.803     310.4759            0    3762.8467     3.407984 
    9500    19175.951    211.72785            0    3762.8298  -0.39025564 
    9550    17669.191    490.85942            0    3762.9319    5.3867954 
    9600    18481.199    340.29485            0    3762.7391    8.9004886 
    9650    20091.442    42.504743            0    3763.1422   -1.3206133 
    9700    19651.405    124.04835            0    3763.1975    1.4000525 
    9750    19138.245    219.03637            0    3763.1558    5.8352794 
    9800    19189.146    209.67958            0    3763.2251     6.214691 
    9850    19899.376    78.096337            0     3763.166  -0.75102404 
    9900    19447.247    161.27279            0    3762.6149   -6.4166376 
    9950    19807.083    95.152663            0    3763.1309  -0.88933698 
   10000    18972.157    249.56342            0    3762.9258    1.9189241 
Loop time of 9.05599 on 4 procs for 10000 steps with 81 atoms

Performance: 9540.646 tau/day, 1104.241 timesteps/s
94.6% CPU use with 4 MPI tasks x 1 OpenMP threads

MPI task timing breakdown:
Section |  min time  |  avg time  |  max time  |%varavg| %total
---------------------------------------------------------------
Pair    | 0.009043   | 0.030098   | 0.048276   |   8.1 |  0.33
Neigh   | 0.012702   | 0.02622    | 0.04009    |   6.1 |  0.29
Comm    | 0.99902    | 1.2924     | 1.6008     |  24.3 | 14.27
Output  | 0.0057414  | 0.010684   | 0.024912   |   7.9 |  0.12
Modify  | 7.2674     | 7.5881     | 7.9123     |  10.6 | 83.79
Other   |            | 0.1085     |            |       |  1.20

Nlocal:    20.25 ave 37 max 0 min
Histogram: 1 0 1 0 0 0 0 0 0 2
Nghost:    17.75 ave 33 max 4 min
Histogram: 2 0 0 0 0 0 0 0 1 1
Neighs:    144.75 ave 356 max 0 min
Histogram: 2 0 0 0 0 0 1 0 0 1

Total # of neighbors = 579
Ave neighs/atom = 7.14815
Neighbor list builds = 994
Dangerous builds = 958

Please see the log.cite file for references relevant to this simulation

Total wall time: 0:00:09
